Co-expression analysis

Gene ID At1g13710
Gene name CYP78A5
Module size 36 genes
NF 0.29
%ile 36.1



Co-expression network

pink confeito: Transcription factor, green bicone: Binding protein, red cone: Enzyme protein, blue sphere: Other protein
large node: VF over 0.50, middle node: over 0.25, small node: below 0.25



Co-expressed genes

Click gene/probe ID to show a list of genes that are co-expressed with the gene.

VF %ile CC Gene ID Repr. ID Gene name Func. O.I. H.G. S.X. Other DB
0.6579.61.00At1g13710837932CYP78A5member of CYP78AO.I.H.G.S.X.
0.5974.70.63At1g02800839385ATCEL2Encodes a protein with similarity to endo-1,4-b-glucanases and is a member of Glycoside Hydrolase Family 9. CEL2 is induced by nemotodes and is expressed in syncitia induced by Heterodera schachtii.May be involved in the development and function of syncitia.O.I.H.G.S.X.
0.5873.80.66At4g34400829590DNA binding / transcription factorF:transcription factor activity, DNA binding;P:regulation of transcription, DNA-dependent;C:endomembrane system;MOBFPVAO.I.H.G.S.X.
0.5570.60.67At5g07180830609ERL2 (ERECTA-LIKE 2)Encodes a receptor-like kinase that, together with ER and ERL1 governs the initial decision of protodermal cells to either divide proliferatively to produce pavement cells or divide asymmetrically to generate stomatal complexes. It is also important for maintaining stomatal stem cell activity and preventing terminal differentiation of the meristemoid into the guard mother cell. When heterozygous in an er/erl1 null background, plants are female sterile due to cell division defect in the integuments.O.I.H.G.S.X.
0.4761.20.66At1g62500842547protease inhibitor/seed storage/lipid transfer protein (LTP) family proteinF:lipid binding;P:lipid transport;C:endomembrane system;MBPOFVAO.I.H.G.S.X.
0.4659.80.61At4g30130829136unknown proteinF:molecular_function unknown;P:N-terminal protein myristoylation;C:cellular_component unknown;PMFO.I.H.G.S.X.
0.4457.20.59At3g06220819796DNA binding / transcription factorF:transcription factor activity, DNA binding;P:regulation of transcription, DNA-dependent;C:cellular_component unknown;PO.I.H.G.S.X.
0.4355.30.61At3g59270825096syntaxin-related family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.4253.90.72At4g37750829931ANT (AINTEGUMENTA)ANT is required for control of cell proliferation and encodes a putative transcriptional regulator similar to AP2. Loss of function alleles have reduced fertility, abnormal ovules and abnormal lateral organs. Expressed specifically in the chalaza and in floral organ primordia.O.I.H.G.S.X.
0.4253.90.62At2g26330817173ER (ERECTA)Homologous to receptor protein kinases. Involved in specification of organs originating from the shoot apical meristem. Contains a cytoplasmic protein kinase catalytic domain, a transmembrane region, and an extracellular leucine-rich repeat. ER has been identified as a quantitative trait locus for transpiration efficiency by influencing epidermal and mesophyll development, stomatal density and porosity of leaves. It has been implicated in resistance to the bacterium Ralstonia solanacearum and to the necrotrophic fungus Plectosphaerella cucumerina. Together with ERL1 and ERL2, ER governs the initial decision of protodermal cells to either divide proliferatively to produce pavement cells or divide asymmetrically to generate stomatal complexes.O.I.H.G.S.X.
0.4152.40.58At3g13960820609AtGRF5 (GROWTH-REGULATING FACTOR 5)Growth regulating factor encoding transcription activator. One of the nine members of a GRF gene family, containing nuclear targeting domain. Involved in leaf development and expressed in root, shoot and flower.O.I.H.G.S.X.
0.4050.80.61At1g44760841040universal stress protein (USP) family proteinF:molecular_function unknown;P:response to stress;C:unknown;PMOO.I.H.G.S.X.
0.3948.40.65At1g67040843024unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMFO.I.H.G.S.X.
0.3745.00.66At3g02210821245COBL1 (COBRA-LIKE PROTEIN 1 PRECURSOR)F:unknown;P:biological_process unknown;C:anchored to membrane;PO.I.H.G.S.X.
0.3745.00.59At2g32765817837SUMO5 (SMALL UBIQUITINRELATED MODIFIER 5)Encodes a small ubiquitin-like modifier (SUMO) protein that becomes covalently attached to various intracellular protein targets through an isopeptide bond. SUMOylation typically has a post-translational effect on the behavior of the target protein.O.I.H.G.S.X.
0.3541.60.66At5g08000830694E13L3 (GLUCAN ENDO-1,3-BETA-GLUCOSIDASE-LIKE PROTEIN 3)Encodes a member of the X8-GPI family of proteins. It localizes to the plasmodesmata and binds callose.O.I.H.G.S.X.
0.3439.80.62At2g42800818880AtRLP29 (Receptor Like Protein 29)F:protein binding;P:unknown;C:anchored to membrane, plant-type cell wall;PMOBFAO.I.H.G.S.X.
0.3439.80.66At1g10980837641-F:unknown;P:biological_process unknown;C:vacuole;MFPOO.I.H.G.S.X.
0.3235.70.62At3g13510820553unknown proteinF:unknown;P:biological_process unknown;C:endomembrane system;PFBO.I.H.G.S.X.
0.3032.10.60At1g55200841963protein kinase family proteinF:protein tyrosine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:plasma membrane;MPOBFVAO.I.H.G.S.X.
0.2830.30.68At2g45190819127AFO (ABNORMAL FLORAL ORGANS)Encodes a member of the YABBY family of transcriptional regulators that is involved in abaxial cell type specification in leaves and fruits. YAB1 acts in a non-cell autonomous fashion within the meristem to affect phyllotactic patterning. The non-autonomous effect on the central region of the meristem is mediated through the activity if Lateral Suppressor (LAS).O.I.H.G.S.X.
0.2830.30.63At2g28790817428osmotin-like protein, putativeF:molecular_function unknown;P:response to other organism;C:plant-type cell wall;PFMBOO.I.H.G.S.X.
0.2726.20.62At3g17680821035-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POMBFO.I.H.G.S.X.
0.2522.60.57At5g51750835249ATSBT1.3 (ARABIDOPSIS THALIANA SUBTILASE 1.3)F:identical protein binding, serine-type endopeptidase activity;P:proteolysis, negative regulation of catalytic activity;C:apoplast;BPFOAMO.I.H.G.S.X.
0.2522.60.59At5g48480834903unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BPOO.I.H.G.S.X.
0.2522.60.60At1g78430844179-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOBFPAVO.I.H.G.S.X.
0.2319.30.64At2g43800818984formin homology 2 domain-containing protein / FH2 domain-containing proteinF:actin binding;P:cellular component organization, actin cytoskeleton organization;C:plasma membrane;MPFOBVAO.I.H.G.S.X.
0.2319.30.59At3g58770825046unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POO.I.H.G.S.X.
0.2319.30.62At5g65410836666HB25 (HOMEOBOX PROTEIN 25)Encodes ZFHD2, a member of the zinc finger homeodomain transcriptional factor family.O.I.H.G.S.X.
0.2014.40.62At3g63300825505phosphoinositide bindingF:phosphoinositide binding;P:signal transduction;C:unknown;OMPBFO.I.H.G.S.X.
0.2014.40.65At1g72670843599iqd8 (IQ-domain 8)F:calmodulin binding;P:biological_process unknown;C:cellular_component unknown;PMFOO.I.H.G.S.X.
0.1811.40.58At1g05370837038-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;FPMOO.I.H.G.S.X.
0.1811.40.58At2g16270816123unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;MOBFPVAO.I.H.G.S.X.
0.1710.20.57At4g23800828480high mobility group (HMG1/2) family proteinF:transcription factor activity;P:unknown;C:nucleus, chloroplast;MOBFPAVO.I.H.G.S.X.
0.157.80.61At3g23890821972TOPII (TOPOISOMERASE II)Encodes a topoisomerase II that is highly expressed in young seedlings. The protein is localized in the nucleus and gene expression levels are increased in proliferative tissues.O.I.H.G.S.X.
0.103.40.61At1g57820842157VIM1 (VARIANT IN METHYLATION 1)Encodes a 645-amino acid methylcytosine-binding protein with a PHD domain, two RING finger domains, and an SRA domain that is involved in centromere heterochromatinization. This protein functions as an E3 ubiquitin ligase in vitro. The protein has been shown to bind to methylated cytosines of CG, CNG and CNN motifs via its SRA domain but has a preference for the former. It plays a role in the establishment/maintenance of chromatin structure during cell division and is localized in the nucleus. Plants over-expressing VIM1/ORTH2 show an inhibition in root growth and a delay in flowering. Both over-expression of GFP:ORTH2 and loss of ORTH2/VIM1 lead to decreased levels of DNA methylation. GFP:ORTH2 over-expressers also have increased levels of FWA transcripts.O.I.H.G.S.X.

Click More genes

Link to AtGenExpress Visualization Tool



Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
52.899.8GSM311278Laser capture microdissected (LCM) peripheral endosperm at the pre-globular stage, biological replicate 2GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
51.899.8GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
45.699.8GSM311277Laser capture microdissected (LCM) peripheral endosperm at the pre-globular stage, biological replicate 1GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
43.699.8GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
41.299.8GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
33.499.7GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
32.099.7GSM133758Lindsey_1-11_heart-stage-root_Rep2_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
30.699.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
26.799.7GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.499.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
25.699.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
25.599.7GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
25.199.6GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
24.599.6GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
24.099.6GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
23.299.6GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
23.199.6GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
22.599.6GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
22.299.6GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
22.199.6GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
21.799.6GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
21.699.6GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
21.399.6GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
20.999.6GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
20.399.6GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
20.399.6GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
20.299.6GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
19.099.5GSM284391Arabidopsis GPE3GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
15.999.5GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
13.699.4GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
10.899.2GSM154508Arabidopsis growing pollen tubes rep2GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
9.899.1E-MEXP-1725-raw-cel-1669614634
9.699.1GSM226538L8SBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
9.099.1E-MEXP-98-raw-cel-320188749
8.799.0GSM311291Laser capture microdissected (LCM) chalazal endosperm at the linear-cotyledon stage, biological replicate 1GSE12403Expression data from Arabidopsis seed compartments at the linear-cotyledon stageLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0892GO:0010103The process by which the anatomical structures of the stomatal complex are generated and organized. Morphogenesis pertains to the creation of form. The stomatal complex is the stomatal guard cells and their associated epidermal cells.Link to AmiGO
0.0541GO:0010159The regionalization process by which information that determines the correct position at which organ primordia are formed is generated and perceived resulting in correct positioning of the new organ.Link to AmiGO
0.0541GO:0030155Any process that modulates the frequency, rate or extent of attachment of a cell to another cell or to the extracellular matrix.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.020100945Stilbenoid, diarylheptanoid and gingerol biosynthesisLink to KEGG PATHWAY
0.019100903Limonene and pinene degradationLink to KEGG PATHWAY

Inter-species module comparison

Select a plant to compare co-expressed genes between species.
Glycine_max
Hordeum_vulgare
Oryza_sativa
Populus_trichocarpa
Triticum_aestivum
Vitis_vinifera
Zea_mays



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